TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1702c/-:

update plot	correlation	link to info on gene
Rv0659c/mazF2	(cc=0.4413)	info on Rv0659c/mazF2
Rv0388c/PPE9	(cc=0.4379)	info on Rv0388c/PPE9
Rv2880c/-	(cc=0.4163)	info on Rv2880c/-
Rv3521/-	(cc=0.4146)	info on Rv3521/-
Rv3451/cut3	(cc=0.4125)	info on Rv3451/cut3
Rv2302/-	(cc=0.4112)	info on Rv2302/-
Rv1000c/-	(cc=0.3977)	info on Rv1000c/-
Rv2349c/plcC	(cc=0.392)	info on Rv2349c/plcC
Rv3095/-	(cc=0.39)	info on Rv3095/-
Rv2704/-	(cc=0.3706)	info on Rv2704/-

Correlation of Rv1702c/- with Rv3451/cut3

Normalized LFCs for Rv1702c/-:
(description and provenance of datasets)

	Rv1702c/-	Rv3451/cut3
Fe_supp_jason_reseq	0.508	0.147
low_pH_jason_reseq	-1.246	-0.683
NO_jason_reseq	0.504	0.326
B6_jason_reseq	0.204	0.145
MHCII_jason_reseq	0.512	0.496
Isoniazid02	0.0	-0.822
Rifampicin4	0.027	0.13
Ethambutol3	-0.063	-0.68
Meropenem3	-0.252	-0.811
Vancomycin16	0.135	-0.594
Rv2680_day32	-0.432	0.388
H37Rv_KO_MarP	0.025	0.433
hypoxia_3wks	-0.159	0.159
hypoxia_6wks	-0.367	-0.76
glycerol	0.164	0.451
cholesterol	-0.155	0.083
AJ	0.326	0.37
Bibs02	0.789	0.997
Bibs02c	0.123	0.574
BL6	-0.422	0.049
BL6a	0.257	-0.022
BXD01	-0.032	-0.2
BXD010	0.35	-0.432
BXD011	0.159	-0.35
BXD03	0.117	0.015
BXD04	-0.133	-0.316
BXD05	0.231	-0.156
BXD06	-0.024	-0.398
BXD07	-0.304	0.144
BXD08	0.085	-0.568
BXD09	-0.078	-0.239
CAST	0.122	-0.017
CCcont	-0.444	-0.945
DS01	-0.072	0.39
DS02	-0.054	-0.361
DS04	0.86	0.344
DS0c	-0.107	0.13
GP01	-0.024	0.354
GP02	0.332	-0.031
GP0c	0.112	-0.2
NOD	0.08	0.547
NZO	0.507	-0.022
PWK	0.48	0.318
H37Rv_KO_CtpC	-0.111	-0.162
H37Rv_KO_CtpD	-0.56	0.53
H37Rv_KO_Rv1272	0.19	-0.793
H37Rv_KO_SugABC	0.595	-0.052
H37Rv_KO_MbtN	-0.576	-0.793
Trans05	0.217	-0.58
macrophage_unactivated	0.35	-0.294
IL1	0.635	-0.101
Rapamycin	0.552	0.509
Tcell	0.026	-0.89
GMCSF	0.581	0.554
IFNab	0.269	-0.07
IFNg	0.021	-0.315
IFNg_GMCSF1	0.588	-0.273
Rv1432_day32	0.242	0.253
Rv1565c_day32	-0.161	-1.115
secA2_input	0.157	-0.128
delta_Rv3594	-0.255	-0.62
delta_Rv3717	-0.333	-0.526
delta_Rv3811	-0.18	-1.112
delta_Rv0954	0.446	0.08
PonA1	-0.381	-0.075
EccD1_KO	0.717	0.332
EspI_KO	0.365	0.511
PE35_KO	-0.411	0.0
PPE68_KO	0.346	0.246
glycerol2	-0.485	-0.254
lignocerate	-0.145	-0.684
oleate	-0.115	0.5
phosphatidylcholine	0.119	-0.153
acetate	-0.449	-0.72
glucAc	-0.279	-1.146
Rv0950ko	0.265	0.087
Rv1096ko	-0.069	0.069
Rv3684ko	-0.229	-0.193
delta_otsA_trehalose	-0.323	0.731